Histone H2A (LOC494591) is a 130-residue protein from Xenopus laevis. This is its AlphaFold structure prediction, created 1 Jun 2022. UniProt accession: Q6AZJ8.
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The mean pLDDT of this model is 90.0 (confident overall). pLDDT is AlphaFold's per-residue confidence score from 0 to 100. In MolViewer, choose the B-factor color scheme to color the model by pLDDT, because AlphaFold stores it in the B-factor column.
| pLDDT band | Meaning | Share of residues |
|---|---|---|
| Above 90 | Very high: backbone and side chains are usually accurate | 79% |
| 70 to 90 | Confident: backbone generally right | 5% |
| 50 to 70 | Low: treat with caution | 12% |
| Below 50 | Very low: often disordered regions | 5% |
What pLDDT means and how to read it
Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling
The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA
Chromosome, Nucleus
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 8RUQ | EM | 2.29 Å | C/G=2-130 |
| 3MGR | X-ray | 2.3 Å | C/G=2-120 |
| 8G86 | EM | 2.3 Å | C/G=2-130 |
| 8G88 | EM | 2.3 Å | C/G=2-130 |
| 4KHA | X-ray | 2.35 Å | B=15-103 |
| 6YN1 | X-ray | 2.35 Å | A/F/K/P/U/Z/e/j=14-119 |
| 9WC0 | EM | 2.4 Å | C/G=2-130 |
| 3MGP | X-ray | 2.44 Å | C/G=2-120 |
| 3LZ0 | X-ray | 2.5 Å | C/G=2-120 |
| 3LZ1 | X-ray | 2.5 Å | C/G=2-120 |
| 9N6H | EM | 2.54 Å | C/G=11-120 |
| 9N6I | EM | 2.61 Å | C/G=11-120 |
| 3MGQ | X-ray | 2.65 Å | C/G=2-120 |
| 4KGC | X-ray | 2.69 Å | C/G=1-130 |
| 6K01 | X-ray | 2.84 Å | C=15-106 |
| 3MVD | X-ray | 2.9 Å | C/G=2-130 |
| 8KD3 | EM | 2.9 Å | Q/U=2-130 |
| 9N6K | EM | 2.9 Å | C/G=11-120 |
| 9WBZ | EM | 2.9 Å | C/G=2-130 |
| 8EU2 | EM | 2.93 Å | C=1-130 |
Showing 20 of 64 experimental structures (best resolution first).
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